Strain identifier

BacDive ID: 16134

Type strain: Yes

Species: Streptomyces zaomyceticus

Strain history: KCC S-0179 <-- M. Mayama <-- Y. Hinuma N-187.

NCBI tax ID(s): 68286 (species)

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General

@ref: 9257

BacDive-ID: 16134

DSM-Number: 40196

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production

description: Streptomyces zaomyceticus DSM 40196 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and produces antibiotic compounds.

NCBI tax id

  • NCBI tax id: 68286
  • Matching level: species

strain history

@refhistory
9257<- E.B. Shirling, ISP <- N. Ishida, MTHU, N-187
67770KCC S-0179 <-- M. Mayama <-- Y. Hinuma N-187.

doi: 10.13145/bacdive16134.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces zaomyceticus
  • full scientific name: Streptomyces zaomyceticus Hinuma 1954 (Approved Lists 1980)

@ref: 9257

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces zaomyceticus

full scientific name: Streptomyces zaomyceticus Hinuma 1954

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.901
69480100positive

colony morphology

@refcolony colorincubation periodmedium used
19422Brown10-14 daysISP 2
19422Ivory10-14 daysISP 3
19422Ivory10-14 daysISP 4
19422Ivory10-14 daysISP 5
19422Ivory10-14 daysISP 6
19422Brown10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19422yesAerial MyceliumWhiteISP 2
19422yesAerial MyceliumWhiteISP 3
19422yesAerial MyceliumWhiteISP 4
19422yesAerial MyceliumWhiteISP 5
19422yesAerial MyceliumWhiteISP 6
19422noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9257GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
19422ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19422ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19422ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19422ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19422ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19422ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes

culture temp

@refgrowthtypetemperaturerange
9257positivegrowth28mesophilic
19422positiveoptimum30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore descriptionspore formationconfidence
19422Formation of spore chains: rectiflixibilis, spore surface: smoothyes
69481yes100
69480yes100

compound production

@refcompound
9257zaomycin
20216Zaomycin
67770Zaomycin

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1942262968cellulose-
1942216634raffinose-
1942226546rhamnose-
1942228757fructose+/-
1942229864mannitol+/-
1942217268myo-inositol+/-
1942218222xylose+/-
1942217992sucrose+/-
1942222599arabinose+
1942217234glucose+
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase+4.1.1.17
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19422+++++++--++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
9257soilJapanJPNAsia
67770SoilJapanJPNAsiaMt. Zao, Yamagata Pref.

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_490.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_403;99_490&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: EF178685
  • Sequence Identity:
  • Total samples: 9252
  • soil counts: 6254
  • aquatic counts: 336
  • animal counts: 471
  • plant counts: 2191

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
92571Risk group (German classification)
194221Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces zaomyceticus gene for 16S rRNA, partial sequenceAB122759564ena68286
20218Streptomyces zaomyceticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4864D44414120ena68286
20218Streptomyces zaomyceticus gene for 16S rRNA, partial sequence, strain: NBRC 13348AB1843461467ena68286
20218Streptomyces zaomyceticus strain NRRL B-2038 16S ribosomal RNA gene, partial sequenceEF1786851487ena68286

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces zaomyceticus JCM 4864GCA_014656215contigncbi68286
66792Streptomyces zaomyceticus strain JCM 486468286.5wgspatric68286

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes88.107no
anaerobicno99.22no
halophileno95.392no
spore-formingyes94.655yes
glucose-utilyes89.841yes
thermophileno98.711yes
flagellatedno97.387no
motileno94.888no
aerobicyes92.386no
glucose-fermentno87.441no

External links

@ref: 9257

culture collection no.: DSM 40196, ATCC 27482, CBS 649.72, IFO 13348, ISP 5196, JCM 4179, JCM 4864, KCC S-0179, KCC S-0864, NBRC 13348, NRRL B-2038, RIA 1309, MTHU N-187, BCRC 12317, CGMCC 4.1953, NCIMB 9850, VKM Ac-1192

straininfo link

  • @ref: 85199
  • straininfo: 39023

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9257Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40196)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40196
19422Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40196.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
85199Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID39023.1StrainInfo: A central database for resolving microbial strain identifiers